Several universities have sent out emails to EU students saying fees won't change this year.
Considering the UK will remain in the EU for another 2 years, the current system will probably continue for this period.
Once the country is completely out, it is possible EU students will get the same fees as normal international students as the government will no longer be obliged to subsidise them as they do for UK students.
Quite likely there'll be new student loan companies to compensate for this.